One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/05/27/peak-motifs.2025-05-27.150858_2025-05-27.150858_qN5T3u/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2025/05/27/peak-motifs.2025-05-27.150858_2025-05-27.150858_qN5T3u/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m3_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=12; shift=0; ncol=12; wwATGCGCTTww ; Alignment reference a 141 165 350 21 32 32 22 24 28 71 155 137 c 47 54 9 14 7 342 3 356 11 29 54 77 g 60 67 15 30 345 10 356 6 17 24 58 49 t 161 123 35 344 25 25 28 23 353 285 142 146

oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; wwATGCGCTTww ; cor=; Ncor= a 141 165 350 21 32 32 22 24 28 71 155 137 c 47 54 9 14 7 342 3 356 11 29 54 77 g 60 67 15 30 345 10 356 6 17 24 58 49 t 161 123 35 344 25 25 28 23 353 285 142 146

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m4_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=13; shift=0; ncol=13; wwtAgACACACww ; Alignment reference a 214 261 79 491 64 493 30 489 26 450 43 245 193 c 81 58 74 17 66 15 467 16 458 15 467 82 119 g 79 67 40 20 377 18 22 13 42 12 20 33 72 t 195 183 376 41 62 43 50 51 43 92 39 209 185

oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/1; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; wwtAgACACACww ; cor=; Ncor= a 214 261 79 491 64 493 30 489 26 450 43 245 193 c 81 58 74 17 66 15 467 16 458 15 467 82 119 g 79 67 40 20 377 18 22 13 42 12 20 33 72 t 195 183 376 41 62 43 50 51 43 92 39 209 185

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m1_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=16; shift=0; ncol=16; wwAGCAAGCAGcAgww ; Alignment reference a 100 113 228 26 35 237 249 22 30 256 38 48 224 41 119 114 c 54 42 20 7 206 17 5 10 210 4 18 187 9 19 55 37 g 41 48 12 234 19 6 12 238 14 5 205 22 17 193 36 49 t 96 88 31 24 31 31 25 21 37 26 30 34 41 38 81 91

oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/1; ncol2=16; w=0; offset=0; strand=D; shift=0; score= 1; wwAGCAAGCAGcAgww ; cor=; Ncor= a 100 113 228 26 35 237 249 22 30 256 38 48 224 41 119 114 c 54 42 20 7 206 17 5 10 210 4 18 187 9 19 55 37 g 41 48 12 234 19 6 12 238 14 5 205 22 17 193 36 49 t 96 88 31 24 31 31 25 21 37 26 30 34 41 38 81 91

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m3_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3; m=0 (reference); ncol1=16; shift=0; ncol=16; whAAgCAAgCAAAcwa ; Alignment reference a 270 210 433 537 130 42 547 568 143 19 535 510 444 83 339 350 c 59 169 42 18 13 523 14 9 17 558 12 29 22 406 65 64 g 120 58 35 15 415 10 6 12 412 9 11 22 73 26 38 50 t 163 175 102 42 54 37 45 23 40 26 54 51 73 97 170 148

oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=1/3; ncol2=16; w=0; offset=0; strand=D; shift=0; score= 1; whAAgCAAgCAAAcwa ; cor=; Ncor= a 270 210 433 537 130 42 547 568 143 19 535 510 444 83 339 350 c 59 169 42 18 13 523 14 9 17 558 12 29 22 406 65 64 g 120 58 35 15 415 10 6 12 412 9 11 22 73 26 38 50 t 163 175 102 42 54 37 45 23 40 26 54 51 73 97 170 148

oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m1; m=2/3; ncol2=13; w=0; offset=2; strand=D; shift=2; score=0.641129; --wwACAAACAAAhw- ; cor=; Ncor= a 0 0 807 781 1274 121 1434 1397 1396 90 1438 1384 1174 496 789 0 c 0 0 164 167 40 1244 24 28 22 1268 21 44 87 387 152 0 g 0 0 137 131 64 47 13 25 41 29 17 20 82 138 108 0 t 0 0 419 448 149 115 56 77 68 140 51 79 184 506 478 0

oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m2; m=3/3; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.488198; ---wwCAAACAmww-- ; cor=; Ncor= a 0 0 0 718 652 135 1534 1503 1490 66 1510 436 753 538 0 0 c 0 0 0 221 172 1321 18 39 24 1392 19 973 209 365 0 0 g 0 0 0 122 257 49 12 25 45 19 10 66 126 168 0 0 t 0 0 0 548 528 104 45 42 50 132 70 134 521 538 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m4_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; wwGGGGAAAww ; Alignment reference a 346 348 75 109 101 83 828 827 822 374 333 c 89 69 7 11 13 19 8 5 8 118 153 g 175 158 735 700 671 712 17 17 12 118 107 t 264 299 57 54 89 60 21 25 32 264 281

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; wwGGGGAAAww ; cor=; Ncor= a 346 348 75 109 101 83 828 827 822 374 333 c 89 69 7 11 13 19 8 5 8 118 153 g 175 158 735 700 671 712 17 17 12 118 107 t 264 299 57 54 89 60 21 25 32 264 281

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift2 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=13; shift=2; ncol=15; --wwACAAACAAAhw ; Alignment reference a 0 0 807 781 1274 121 1434 1397 1396 90 1438 1384 1174 496 789 c 0 0 164 167 40 1244 24 28 22 1268 21 44 87 387 152 g 0 0 137 131 64 47 13 25 41 29 17 20 82 138 108 t 0 0 419 448 149 115 56 77 68 140 51 79 184 506 478

oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/3; ncol2=13; w=0; offset=0; strand=D; shift=2; score= 1; --wwACAAACAAAhw ; cor=; Ncor= a 0 0 807 781 1274 121 1434 1397 1396 90 1438 1384 1174 496 789 c 0 0 164 167 40 1244 24 28 22 1268 21 44 87 387 152 g 0 0 137 131 64 47 13 25 41 29 17 20 82 138 108 t 0 0 419 448 149 115 56 77 68 140 51 79 184 506 478

oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=2/3; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.740561; ---wwCAAACAmww- ; cor=; Ncor= a 0 0 0 718 652 135 1534 1503 1490 66 1510 436 753 538 0 c 0 0 0 221 172 1321 18 39 24 1392 19 973 209 365 0 g 0 0 0 122 257 49 12 25 45 19 10 66 126 168 0 t 0 0 0 548 528 104 45 42 50 132 70 134 521 538 0

oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m3; m=3/3; ncol2=16; w=-2; offset=-2; strand=D; shift=0; score=0.641129; whAAgCAAgCAAAcw ; cor=; Ncor= a 270 210 433 537 130 42 547 568 143 19 535 510 444 83 339 c 59 169 42 18 13 523 14 9 17 558 12 29 22 406 65 g 120 58 35 15 415 10 6 12 412 9 11 22 73 26 38 t 163 175 102 42 54 37 45 23 40 26 54 51 73 97 170

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m2_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=15; shift=0; ncol=15; hwcCcCCaCCcccwh ; Alignment reference a 148 204 84 61 107 43 46 371 44 38 135 105 101 203 160 c 153 100 306 424 359 457 451 76 441 450 269 286 301 110 146 g 52 63 43 14 18 13 12 28 17 15 39 35 33 76 66 t 201 187 121 55 70 41 45 79 52 51 111 128 119 165 182

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/1; ncol2=15; w=0; offset=0; strand=D; shift=0; score= 1; hwcCcCCaCCcccwh ; cor=; Ncor= a 148 204 84 61 107 43 46 371 44 38 135 105 101 203 160 c 153 100 306 424 359 457 451 76 441 450 269 286 301 110 146 g 52 63 43 14 18 13 12 28 17 15 39 35 33 76 66 t 201 187 121 55 70 41 45 79 52 51 111 128 119 165 182

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m5_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=16; shift=0; ncol=16; wwwTTCACTCAcTaww ; Alignment reference a 149 118 101 41 47 23 343 27 24 36 342 66 52 229 168 109 c 48 88 31 41 13 330 9 324 10 320 5 261 19 60 49 87 g 39 34 8 14 14 6 15 6 4 4 6 15 14 20 39 47 t 158 154 254 298 320 35 27 37 356 34 41 52 309 85 138 151

oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/1; ncol2=16; w=0; offset=0; strand=D; shift=0; score= 1; wwwTTCACTCAcTaww ; cor=; Ncor= a 149 118 101 41 47 23 343 27 24 36 342 66 52 229 168 109 c 48 88 31 41 13 330 9 324 10 320 5 261 19 60 49 87 g 39 34 8 14 14 6 15 6 4 4 6 15 14 20 39 47 t 158 154 254 298 320 35 27 37 356 34 41 52 309 85 138 151

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m2_shift3 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=11; shift=3; ncol=14; ---wwCAAACAmww ; Alignment reference a 0 0 0 718 652 135 1534 1503 1490 66 1510 436 753 538 c 0 0 0 221 172 1321 18 39 24 1392 19 973 209 365 g 0 0 0 122 257 49 12 25 45 19 10 66 126 168 t 0 0 0 548 528 104 45 42 50 132 70 134 521 538

oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---wwCAAACAmww ; cor=; Ncor= a 0 0 0 718 652 135 1534 1503 1490 66 1510 436 753 538 c 0 0 0 221 172 1321 18 39 24 1392 19 973 209 365 g 0 0 0 122 257 49 12 25 45 19 10 66 126 168 t 0 0 0 548 528 104 45 42 50 132 70 134 521 538

oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=2/3; ncol2=13; w=-1; offset=-1; strand=D; shift=2; score=0.740561; --wwACAAACAAAh ; cor=; Ncor= a 0 0 807 781 1274 121 1434 1397 1396 90 1438 1384 1174 496 c 0 0 164 167 40 1244 24 28 22 1268 21 44 87 387 g 0 0 137 131 64 47 13 25 41 29 17 20 82 138 t 0 0 419 448 149 115 56 77 68 140 51 79 184 506

oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m3; m=3/3; ncol2=16; w=-3; offset=-3; strand=D; shift=0; score=0.488198; whAAgCAAgCAAAc ; cor=; Ncor= a 270 210 433 537 130 42 547 568 143 19 535 510 444 83 c 59 169 42 18 13 523 14 9 17 558 12 29 22 406 g 120 58 35 15 415 10 6 12 412 9 11 22 73 26 t 163 175 102 42 54 37 45 23 40 26 54 51 73 97

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m5_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=12; shift=0; ncol=12; wwwCACCGAAww ; Alignment reference a 137 180 113 13 386 40 20 34 373 365 147 139 c 89 51 39 390 8 348 364 17 17 20 37 87 g 75 62 25 10 7 13 1 344 18 18 101 68 t 132 140 256 20 32 32 48 38 25 30 148 139

oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; wwwCACCGAAww ; cor=; Ncor= a 137 180 113 13 386 40 20 34 373 365 147 139 c 89 51 39 390 8 348 364 17 17 20 37 87 g 75 62 25 10 7 13 1 344 18 18 101 68 t 132 140 256 20 32 32 48 38 25 30 148 139

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m3; m=0 (reference); ncol1=16; shift=0; ncol=16; whAAgCAAgCAAAcwa ; Alignment reference a 270 210 433 537 130 42 547 568 143 19 535 510 444 83 339 350 c 59 169 42 18 13 523 14 9 17 558 12 29 22 406 65 64 g 120 58 35 15 415 10 6 12 412 9 11 22 73 26 38 50 t 163 175 102 42 54 37 45 23 40 26 54 51 73 97 170 148
oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=1/3; ncol2=16; w=0; offset=0; strand=D; shift=0; score= 1; whAAgCAAgCAAAcwa ; cor=; Ncor= a 270 210 433 537 130 42 547 568 143 19 535 510 444 83 339 350 c 59 169 42 18 13 523 14 9 17 558 12 29 22 406 65 64 g 120 58 35 15 415 10 6 12 412 9 11 22 73 26 38 50 t 163 175 102 42 54 37 45 23 40 26 54 51 73 97 170 148
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m1; m=2/3; ncol2=13; w=0; offset=2; strand=D; shift=2; score=0.641129; --wwACAAACAAAhw- ; cor=; Ncor= a 0 0 807 781 1274 121 1434 1397 1396 90 1438 1384 1174 496 789 0 c 0 0 164 167 40 1244 24 28 22 1268 21 44 87 387 152 0 g 0 0 137 131 64 47 13 25 41 29 17 20 82 138 108 0 t 0 0 419 448 149 115 56 77 68 140 51 79 184 506 478 0
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m2; m=3/3; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.488198; ---wwCAAACAmww-- ; cor=; Ncor= a 0 0 0 718 652 135 1534 1503 1490 66 1510 436 753 538 0 0 c 0 0 0 221 172 1321 18 39 24 1392 19 973 209 365 0 0 g 0 0 0 122 257 49 12 25 45 19 10 66 126 168 0 0 t 0 0 0 548 528 104 45 42 50 132 70 134 521 538 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=13; shift=2; ncol=15; --wwACAAACAAAhw ; Alignment reference a 0 0 807 781 1274 121 1434 1397 1396 90 1438 1384 1174 496 789 c 0 0 164 167 40 1244 24 28 22 1268 21 44 87 387 152 g 0 0 137 131 64 47 13 25 41 29 17 20 82 138 108 t 0 0 419 448 149 115 56 77 68 140 51 79 184 506 478
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/3; ncol2=13; w=0; offset=0; strand=D; shift=2; score= 1; --wwACAAACAAAhw ; cor=; Ncor= a 0 0 807 781 1274 121 1434 1397 1396 90 1438 1384 1174 496 789 c 0 0 164 167 40 1244 24 28 22 1268 21 44 87 387 152 g 0 0 137 131 64 47 13 25 41 29 17 20 82 138 108 t 0 0 419 448 149 115 56 77 68 140 51 79 184 506 478
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=2/3; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.740561; ---wwCAAACAmww- ; cor=; Ncor= a 0 0 0 718 652 135 1534 1503 1490 66 1510 436 753 538 0 c 0 0 0 221 172 1321 18 39 24 1392 19 973 209 365 0 g 0 0 0 122 257 49 12 25 45 19 10 66 126 168 0 t 0 0 0 548 528 104 45 42 50 132 70 134 521 538 0
oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m3; m=3/3; ncol2=16; w=-2; offset=-2; strand=D; shift=0; score=0.641129; whAAgCAAgCAAAcw ; cor=; Ncor= a 270 210 433 537 130 42 547 568 143 19 535 510 444 83 339 c 59 169 42 18 13 523 14 9 17 558 12 29 22 406 65 g 120 58 35 15 415 10 6 12 412 9 11 22 73 26 38 t 163 175 102 42 54 37 45 23 40 26 54 51 73 97 170

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=11; shift=3; ncol=14; ---wwCAAACAmww ; Alignment reference a 0 0 0 718 652 135 1534 1503 1490 66 1510 436 753 538 c 0 0 0 221 172 1321 18 39 24 1392 19 973 209 365 g 0 0 0 122 257 49 12 25 45 19 10 66 126 168 t 0 0 0 548 528 104 45 42 50 132 70 134 521 538
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---wwCAAACAmww ; cor=; Ncor= a 0 0 0 718 652 135 1534 1503 1490 66 1510 436 753 538 c 0 0 0 221 172 1321 18 39 24 1392 19 973 209 365 g 0 0 0 122 257 49 12 25 45 19 10 66 126 168 t 0 0 0 548 528 104 45 42 50 132 70 134 521 538
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=2/3; ncol2=13; w=-1; offset=-1; strand=D; shift=2; score=0.740561; --wwACAAACAAAh ; cor=; Ncor= a 0 0 807 781 1274 121 1434 1397 1396 90 1438 1384 1174 496 c 0 0 164 167 40 1244 24 28 22 1268 21 44 87 387 g 0 0 137 131 64 47 13 25 41 29 17 20 82 138 t 0 0 419 448 149 115 56 77 68 140 51 79 184 506
oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m3; m=3/3; ncol2=16; w=-3; offset=-3; strand=D; shift=0; score=0.488198; whAAgCAAgCAAAc ; cor=; Ncor= a 270 210 433 537 130 42 547 568 143 19 535 510 444 83 c 59 169 42 18 13 523 14 9 17 558 12 29 22 406 g 120 58 35 15 415 10 6 12 412 9 11 22 73 26 t 163 175 102 42 54 37 45 23 40 26 54 51 73 97